Resource
| Id | DNase-seq/ENCSR255OGF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR255OGF [biosample_summary="Homo sapiens stimulated activated CD4-positive, alpha-beta T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour output_type: peaks audit_warning: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF445MCI|/files/ENCFF445MCI/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR255OGF | float |
DNase-seq_ENCSR255OGF |
DNase-seq ENCSR255OGF [biosample_summary="Homo sapiens stimulated activated CD4-positive, alpha-beta T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-4 for 1 hour"]
|
 |
[0.197, 30.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 6331460 | 0.20% | 33942 |
| chr1 | 654473 | 0.26% | 3516 |
| chr2 | 418947 | 0.17% | 2247 |
| chr3 | 341375 | 0.17% | 1829 |
| chr4 | 211295 | 0.11% | 1131 |
| chr5 | 280352 | 0.15% | 1506 |
| chr6 | 357116 | 0.21% | 1920 |
| chr7 | 284582 | 0.18% | 1528 |
| chr8 | 226002 | 0.16% | 1229 |
| chr9 | 253095 | 0.18% | 1377 |
| chr10 | 267132 | 0.20% | 1446 |
| chr11 | 335039 | 0.25% | 1787 |
| chr12 | 329881 | 0.25% | 1751 |
| chr13 | 122968 | 0.11% | 648 |
| chr14 | 222804 | 0.21% | 1183 |
| chr15 | 206567 | 0.20% | 1119 |
| chr16 | 263639 | 0.29% | 1413 |
| chr17 | 397607 | 0.48% | 2119 |
| chr18 | 92745 | 0.12% | 504 |
| chr19 | 465284 | 0.79% | 2423 |
| chr20 | 177078 | 0.27% | 985 |
| chr21 | 74497 | 0.16% | 396 |
| chr22 | 157573 | 0.31% | 851 |
| chrX | 184848 | 0.12% | 1001 |
| chrY | 6561 | 0.01% | 33 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 33942 | 5 | 740 | 186.54 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF169XPT.bed.gz | 377.17 KB | 7a800dde66254325bf4ca20ae85310ea |
| ENCFF169XPT.tabix.bed.gz | 342.51 KB | 902b522c387befc084fa46e4eb74d879 |
| ENCFF169XPT.tabix.bed.gz.tbi | 187.22 KB | 007079a088b695a2b0132e5d7be4f63b |
| genomic_resource.yaml | 2.62 KB | 298bc46b852ff20511a9c35320021ff1 |
| statistics/ |